{"id":"W4386887363","doi":"10.1101/2023.09.19.558329","title":"Single cell decoding of drug induced transcriptomic reprogramming in triple negative breast cancers","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; University of Toronto; Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"Canadian Cancer Society Research Institute; Canadian Institutes of Health Research; BC Cancer Foundation; Cancer Research UK; Breast Cancer Research Foundation","keywords":"Biology; Copy-number variation; Triple-negative breast cancer; Transcriptome; Breast cancer; Reprogramming; Gene dosage; Cancer research; Genetics; Gene; Cancer; Gene expression; Genome","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001778277,0.0001815747,0.0003352792,0.0002067126,0.0001292591,0.0004391473,0.0002273579,0.0002429204,0.001159265],"category_scores_gemma":[0.0004407623,0.0001590251,0.0002655696,0.0002934671,0.0001945835,0.0001838778,0.0002214649,0.0003281222,0.0004378427],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004261256,"about_ca_system_score_gemma":0.0002299913,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001343327,"about_ca_topic_score_gemma":0.002368025,"domain_scores_codex":[0.9998447,0.000009405886,0.000007638877,0.00006260758,0.00006132888,0.00001425264],"domain_scores_gemma":[0.9997982,0.00006772163,0.00003580724,0.00003050602,0.00004854528,0.00001934286],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00005104029,0.00001175922,0.002349679,0.00005212988,0.000008307286,0.00004908464,0.00004782411,0.0025976,0.9888967,0.0001261729,0.00009900298,0.005710785],"study_design_scores_gemma":[0.000004117155,0.0001603334,0.02600261,0.000009009776,0.00001713256,0.0001612498,0.00008911694,0.04942889,0.921996,0.0002816723,0.00182739,0.00002251451],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9633101,0.0003492231,0.03098419,0.00007122055,0.00003359562,0.00004003834,0.003303412,0.0005026202,0.001405625],"genre_scores_gemma":[0.9758994,0.0003798864,0.01829545,0.00006266458,0.000009442971,0.00008636659,0.00333102,0.0001379054,0.001797832],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001343327,"threshold_uncertainty_score":0.003878057,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02195180745984221,"score_gpt":0.2256444999099145,"score_spread":0.2036926924500723,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}